Variant report

Variant	rs17476088
Chromosome Location	chr6:11579861-11579862
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs11962387	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11962527	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11963496	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11965815	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16871366	1.00[ASN][1000 genomes]
rs17397079	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17397134	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17397448	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17397532	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17476123	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17607332	1.00[ASN][1000 genomes]
rs17607642	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17607970	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17608090	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17608111	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17676117	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41270500	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4336440	0.89[EUR][1000 genomes]
rs547448	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55635543	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55657760	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55691332	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55869413	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs55902701	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56104474	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56156527	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56382227	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56383603	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs58527489	1.00[ASN][1000 genomes]
rs6905551	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6921425	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6936344	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6938970	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72832975	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72833000	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834704	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834705	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72834710	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834714	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834783	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72834784	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72834785	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834795	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834796	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834797	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834801	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834802	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72836604	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72836607	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72836611	0.84[AMR][1000 genomes]
rs72836621	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73721733	1.00[ASN][1000 genomes]
rs7756513	0.84[AMR][1000 genomes]
rs9461774	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9461777	0.86[AMR][1000 genomes]
rs9469166	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9469216	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9469218	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9469222	0.83[AMR][1000 genomes]
rs9469223	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9469359	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9986655	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv600989	chr6:11509323-11581990	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv1015234	chr6:11545582-11583516	Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11567600-11581400	Weak transcription	Fetal Brain Female	brain
2	chr6:11567600-11582600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr6:11567600-11586200	Weak transcription	Fetal Intestine Small	intestine
4	chr6:11567600-11586400	Weak transcription	Fetal Stomach	stomach
5	chr6:11567600-11586600	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr6:11567800-11580000	Weak transcription	Primary B cells from cord blood	blood
7	chr6:11567800-11584200	Weak transcription	HSMMtube	muscle
8	chr6:11567800-11586400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr6:11568000-11586200	Weak transcription	Liver	Liver
10	chr6:11568000-11586600	Weak transcription	Brain Angular Gyrus	brain
11	chr6:11568600-11586800	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr6:11571800-11586600	Weak transcription	Ovary	ovary
13	chr6:11575800-11581000	Weak transcription	Primary hematopoietic stem cells	blood
14	chr6:11575800-11584400	Weak transcription	HSMM	muscle
15	chr6:11575800-11586200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr6:11576000-11580200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr6:11576000-11582600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr6:11576000-11584600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr6:11576000-11586200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr6:11576000-11586400	Weak transcription	HepG2	liver
21	chr6:11576400-11580000	Weak transcription	GM12878-XiMat	blood
22	chr6:11576400-11581600	Weak transcription	Dnd41	blood
23	chr6:11578600-11583200	Enhancers	Primary neutrophils fromperipheralblood	blood
24	chr6:11578800-11580200	Genic enhancers	Primary monocytes fromperipheralblood	blood
25	chr6:11578800-11580200	Genic enhancers	Monocytes-CD14+_RO01746	blood
26	chr6:11579200-11586400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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